Locus 3786

Sequence ID	3L_DroMel_CAF1
Location	10,936,322 – 10,936,420
Length	98
Max. P	0.904329

overview

Window 1

Location	10,936,322 – 10,936,420
Length	98
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	86.21
Mean single sequence MFE	-39.25
Consensus MFE	-31.57
Energy contribution	-31.57
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.52
Structure conservation index	0.80
SVM decision value	0.70
SVM RNA-class probability	0.826962
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10936322 98 + 23771897
UC-----AGCGAUUG------UUUUGCUCCCGCGCAUGCGC-----------GCGGCUCUCUUCAAACGAAAUCACAUCGAAUGUCGUCGCAUGCGCGUGAUCAACGUUGUUGAUCUCUA
..-----(((((...------..)))))..((((((((((.-----------(((((..((..................))..))))))))))))))).(((((((...))))))).... ( -36.07)
>DroVir_CAF1 62668 97 + 1
UC----AAGCGAUUG------UUUUGCUCCCGCGCAUGCGC-----------GCGGCG--CUUCAAACGAAAUCACAUUGAAUGUCGUCGCAUGCGCGUGAUCAACGUUGUUGAUCUGUG
..----.(((((...------..)))))..((((((((((.-----------((((((--.(((((...........))))))))))))))))))))).(((((((...))))))).... ( -39.40)
>DroPse_CAF1 72953 120 + 1
UCGUCGAAGCGAUUGUUCGGGUUUUGCUCCCGCGCAUGCGCCUUGCGGAGGAGCGGCUCUCUUCAAACGAAAUCACAUCGAAUGUCGUCGCAUGCGCGUGAUCAACGUUGUUGAUCUCUG
((((....))))......(((.......)))(((((((((.......((((((.....))))))..((((..((.....))...)))))))))))))(.(((((((...))))))).).. ( -40.40)
>DroGri_CAF1 52881 97 + 1
UC----AAGCGAUUG------UUUUGCUCCCGCGCAUGCGC-----------GCGGCA--UUUCAAACGAAAUCACAUUGAAUGUCGUCGCAUGCGCGUGAUCAACGUUGUUGAUCUGUG
..----.(((((...------..)))))..((((((((((.-----------((((((--((.(((...........))))))))))))))))))))).(((((((...))))))).... ( -39.80)
>DroMoj_CAF1 67470 97 + 1
UC----AAGCGAUUG------UUUUGCUCCCGCGCAUGCGC-----------GCGGCG--CUUCAAACGAAAUCACAUUGAAUGUCGUCGCAUGCGCGUGAUCAACGUUGUUGAUCUGUG
..----.(((((...------..)))))..((((((((((.-----------((((((--.(((((...........))))))))))))))))))))).(((((((...))))))).... ( -39.40)
>DroPer_CAF1 60458 120 + 1
UCGUCGAAGCGAUUGUUCGGGUUUUGCUCCCGCGCAUGCGCCUUGCGGAGGAGCGGCUCUCUUCAAACGAAAUCACAUCGAAUGUCGUCGCAUGCGCGUGAUCAACGUUGUUGAUCUCUG
((((....))))......(((.......)))(((((((((.......((((((.....))))))..((((..((.....))...)))))))))))))(.(((((((...))))))).).. ( -40.40)
>consensus
UC____AAGCGAUUG______UUUUGCUCCCGCGCAUGCGC___________GCGGCU__CUUCAAACGAAAUCACAUCGAAUGUCGUCGCAUGCGCGUGAUCAACGUUGUUGAUCUCUG
.......(((((...........)))))..((((((((((............(((((....(((....))).((.....))..))))))))))))))).(((((((...))))))).... (-31.57 = -31.57 +  -0.00)

alignment

secondary structure

dotplot

Window 2

Location	10,936,322 – 10,936,420
Length	98
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	86.21
Mean single sequence MFE	-37.30
Consensus MFE	-31.15
Energy contribution	-31.32
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-2.49
Structure conservation index	0.84
SVM decision value	1.04
SVM RNA-class probability	0.904329
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10936322 98 - 23771897
UAGAGAUCAACAACGUUGAUCACGCGCAUGCGACGACAUUCGAUGUGAUUUCGUUUGAAGAGAGCCGC-----------GCGCAUGCGCGGGAGCAAAA------CAAUCGCU-----GA
....(((((((...))))))).((((((((((.((.....))..(((.((((.......))))..)))-----------.))))))))))..(((....------.....)))-----.. ( -35.00)
>DroVir_CAF1 62668 97 - 1
CACAGAUCAACAACGUUGAUCACGCGCAUGCGACGACAUUCAAUGUGAUUUCGUUUGAAG--CGCCGC-----------GCGCAUGCGCGGGAGCAAAA------CAAUCGCUU----GA
....(((((((...))))))).((((((((((.((...(((((((......)).))))).--.....)-----------))))))))))).((((....------.....))))----.. ( -35.30)
>DroPse_CAF1 72953 120 - 1
CAGAGAUCAACAACGUUGAUCACGCGCAUGCGACGACAUUCGAUGUGAUUUCGUUUGAAGAGAGCCGCUCCUCCGCAAGGCGCAUGCGCGGGAGCAAAACCCGAACAAUCGCUUCGACGA
....(((((((...))))))).((((((((((.........((.(((.((((.......))))..)))))..((....))))))))))))(((((...............)))))..... ( -41.36)
>DroGri_CAF1 52881 97 - 1
CACAGAUCAACAACGUUGAUCACGCGCAUGCGACGACAUUCAAUGUGAUUUCGUUUGAAA--UGCCGC-----------GCGCAUGCGCGGGAGCAAAA------CAAUCGCUU----GA
....(((((((...))))))).((((((((((.((.(((((((((......)).))).))--))...)-----------))))))))))).((((....------.....))))----.. ( -35.50)
>DroMoj_CAF1 67470 97 - 1
CACAGAUCAACAACGUUGAUCACGCGCAUGCGACGACAUUCAAUGUGAUUUCGUUUGAAG--CGCCGC-----------GCGCAUGCGCGGGAGCAAAA------CAAUCGCUU----GA
....(((((((...))))))).((((((((((.((...(((((((......)).))))).--.....)-----------))))))))))).((((....------.....))))----.. ( -35.30)
>DroPer_CAF1 60458 120 - 1
CAGAGAUCAACAACGUUGAUCACGCGCAUGCGACGACAUUCGAUGUGAUUUCGUUUGAAGAGAGCCGCUCCUCCGCAAGGCGCAUGCGCGGGAGCAAAACCCGAACAAUCGCUUCGACGA
....(((((((...))))))).((((((((((.........((.(((.((((.......))))..)))))..((....))))))))))))(((((...............)))))..... ( -41.36)
>consensus
CACAGAUCAACAACGUUGAUCACGCGCAUGCGACGACAUUCAAUGUGAUUUCGUUUGAAG__AGCCGC___________GCGCAUGCGCGGGAGCAAAA______CAAUCGCUU____GA
....(((((((...))))))).((((((((((((((.(((......))).)))))........((..............))))))))))).((((...............))))...... (-31.15 = -31.32 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:36 2006